Update README and remove stale files

README.md

@@ -60,7 +60,7 @@ GenoTEX is distributed in two ways:
   - Data Available at: [ [Google Drive](https://drive.google.com/drive/folders/1ZQ8AflAecW61SrNclaMby-6x9GLCpJoW) | [Baidu Cloud Disk](https://pan.baidu.com/s/1mKfBRiBNY0GUK6LRLnn7UA?pwd=1234) ] 
   - Total data size: 82.0 GB — Please ensure you have sufficient disk space before downloading.
 
-2. **Complete Datasets on Data Platforms**: We also provide a complete, bundled version (code + data) on [Kaggle](https://www.kaggle.com/datasets/haoyangliu14/genotex-llm-agent-benchmark-for-genomic-analysis) and [Hugging Face Hub](https://huggingface.co/datasets/Liu-Hy/GenoTEX).
+2. **Complete Datasets on Data Platforms**: We also provide a complete, bundled version (code + data) on [Kaggle](https://www.kaggle.com/datasets/haoyangliu14/genotex-llm-agent-benchmark-for-genomic-analysis) and [Hugging Face](https://huggingface.co/datasets/Liu-Hy/GenoTEX).
 These versions are convenient for users who prefer a single download and want to leverage the functionalities of these platforms. 
 
 ### The Data Part
@@ -374,4 +374,4 @@ The GenoTEX dataset is released under a Creative Commons Attribution 4.0 Interna
 <a id="acknowledgments"></a>
 ## 🙏 Acknowledgments
 
-This research was supported by the National AI Research Resource (NAIRR) under grant number 240283. We thank [Yijiang Li](https://williamium3000.github.io/) for his great suggestions to the baseline method, and [Jinglin Jian](https://scholar.google.com/citations?hl=en&user=pXY2xYkAAAAJ), [Jianrong Lu](https://scholar.google.com/citations?hl=en&user=k-oe9TUAAAAJ), [Shuyi Guo](https://github.com/Shuyi1011), Taincheng Xing, Yuxuan Cheng, Jinglei Zhu, Mianchen Zhang, Miantong Zhang for their valuable contribution to the benchmark curation.
+This research was supported by the National AI Research Resource (NAIRR) under grant number 240283. We thank [Yijiang Li](https://williamium3000.github.io/) for his great suggestions to the baseline method, and [Jinglin Jian](https://scholar.google.com/citations?hl=en&user=pXY2xYkAAAAJ), [Jianrong Lu](https://scholar.google.com/citations?hl=en&user=k-oe9TUAAAAJ), [Shuyi Guo](https://github.com/Shuyi1011), Tiancheng Xing, Yuxuan Cheng, Jinglei Zhu, Mianchen Zhang, Miantong Zhang for their valuable contribution to the benchmark curation.

download/.env

@@ -1,2 +0,0 @@
-ENTREZ_EMAIL=techted20@gmail.com
-ENTREZ_API_KEY=374366e5e9115b1a967e3476ae2a5b532808

download/logs/geo_download_20250606_150439.log

@@ -1,48 +0,0 @@
-2025-06-06 15:04:39,149 - INFO - Found 132 keywords to process
-2025-06-06 15:04:39,149 - INFO - Keywords: ['Acute_Myeloid_Leukemia', 'Adrenocortical_Cancer', 'Age-Related_Macular_Degeneration', 'Alcohol_Flush_Reaction', 'Allergies', 'Alopecia', 'Alzheimers_Disease', 'Amyotrophic_Lateral_Sclerosis', 'Angelman_Syndrome', 'Aniridia', 'Ankylosing_Spondylitis', 'Anorexia_Nervosa', 'Anxiety_disorder', 'Arrhythmia', 'Asthma', 'Atherosclerosis', 'Atrial_Fibrillation', 'Autism_spectrum_disorder_(ASD)', 'Autoinflammatory_Disorders', 'Bile_Duct_Cancer', 'Bipolar_disorder', 'Bladder_Cancer', 'Bone_Density', 'Breast_Cancer', 'Brugada_Syndrome', 'COVID-19', 'Canavan_Disease', 'Cardiovascular_Disease', 'Celiac_Disease', 'Cervical_Cancer', 'Chronic_Fatigue_Syndrome', 'Chronic_kidney_disease', 'Chronic_obstructive_pulmonary_disease_(COPD)', 'Colon_and_Rectal_Cancer', 'Congestive_heart_failure', 'Coronary_artery_disease', 'Craniosynostosis', 'Creutzfeldt-Jakob_Disease', 'Crohns_Disease', 'Cystic_Fibrosis', 'Depression', 'Duchenne_Muscular_Dystrophy', 'Eczema', 'Endometrioid_Cancer', 'Endometriosis', 'Epilepsy', 'Esophageal_Cancer', 'Essential_Thrombocythemia', 'Fibromyalgia', 'Gastroesophageal_reflux_disease_(GERD)', 'Gaucher_Disease', 'Generalized_Anxiety_Disorder', 'Glioblastoma', 'Glucocorticoid_Sensitivity', 'HIV_Resistance', 'Head_and_Neck_Cancer', 'Heart_rate', 'Height', 'Hemochromatosis', 'Hepatitis', 'High-Density_Lipoprotein_Deficiency', 'Huntingtons_Disease', 'Hutchinson-Gilford_Progeria_Syndrome', 'Hypertension', 'Hypertrophic_Cardiomyopathy', 'Hypothyroidism', 'Insomnia', 'Intellectual_Disability', 'Irritable_bowel_syndrome_(IBS)', 'Kidney_Chromophobe', 'Kidney_Clear_Cell_Carcinoma', 'Kidney_Papillary_Cell_Carcinoma', 'Kidney_stones', 'LDL_Cholesterol_Levels', 'Lactose_Intolerance', 'Large_B-cell_Lymphoma', 'Liver_Cancer', 'Liver_cirrhosis', 'Longevity', 'Lower_Grade_Glioma', 'Lung_Cancer', 'Lupus_(Systemic_Lupus_Erythematosus)', 'Melanoma', 'Mesothelioma', 'Metabolic_Rate', 'Migraine', 'Mitochondrial_Disorders', 'Multiple_Endocrine_Neoplasia_Type_2', 'Multiple_sclerosis', 'Obesity', 'Obsessive-Compulsive_Disorder', 'Obstructive_sleep_apnea', 'Ocular_Melanomas', 'Osteoarthritis', 'Osteoporosis', 'Ovarian_Cancer', 'Pancreatic_Cancer', 'Parkinsons_Disease', 'Peptic_ulcer_disease', 'Pheochromocytoma_and_Paraganglioma', 'Polycystic_Kidney_Disease', 'Polycystic_Ovary_Syndrome', 'Post-Traumatic_Stress_Disorder', 'Prostate_Cancer', 'Psoriasis', 'Psoriatic_Arthritis', 'Rectal_Cancer', 'Red_Hair', 'Retinoblastoma', 'Rheumatoid_Arthritis', 'Sarcoma', 'Schizophrenia', 'Sickle_Cell_Anemia', 'Sjögrens_Syndrome', 'Stomach_Cancer', 'Stroke', 'Substance_Use_Disorder', 'Telomere_Length', 'Testicular_Cancer', 'Thymoma', 'Thyroid_Cancer', 'Type_1_Diabetes', 'Type_2_Diabetes', 'Underweight', 'Uterine_Carcinosarcoma', 'Uterine_Corpus_Endometrial_Carcinoma', 'Vitamin_D_Levels', 'Von_Hippel_Lindau', 'Von_Willebrand_Disease', 'Werner_Syndrome', 'X-Linked_Lymphoproliferative_Syndrome', 'lower_grade_glioma_and_glioblastoma']
-2025-06-06 15:04:39,149 - INFO - Resuming from checkpoint: i=0, j=0
-2025-06-06 15:04:39,151 - INFO - 
-Processing trait (1/132): Acute_Myeloid_Leukemia
-2025-06-06 15:04:39,151 - INFO - Search query: (30:10000[Number of Samples]) AND ("Homo sapiens"[Organism]) AND (2010:2025[Publication Date]) AND (Acute_Myeloid_Leukemia) AND ("expression profiling by array"[DataSet Type] OR "expression profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by snp array"[DataSet Type] OR "snp genotyping by snp array"[DataSet Type] OR "third party reanalysis"[DataSet Type])
-2025-06-06 15:04:40,671 - INFO - Total results for query: 407
-2025-06-06 15:04:40,671 - INFO - Limiting results to user-specified maximum: 200
-2025-06-06 15:04:40,671 - INFO - Fetching batch 1 of 2 (size: 100)
-2025-06-06 15:04:41,690 - INFO - Successfully retrieved 100 IDs in batch 1
-2025-06-06 15:04:42,190 - INFO - Fetching batch 2 of 2 (size: 100)
-2025-06-06 15:04:42,782 - INFO - Successfully retrieved 100 IDs in batch 2
-2025-06-06 15:04:42,782 - INFO - Found 200 datasets for: Acute_Myeloid_Leukemia
-2025-06-06 15:05:29,135 - INFO - Successfully processed 200 datasets for: Acute_Myeloid_Leukemia
-2025-06-06 15:05:33,451 - INFO - Resuming from checkpoint: i=0, j=0
-2025-06-06 15:05:50,897 - INFO - Family file GSE283532_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:05:50,897 - INFO - No suitable gene expression data in series 0 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:06:08,026 - INFO - Family file GSE283531_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:06:08,026 - INFO - No suitable gene expression data in series 1 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:06:20,908 - INFO - Family file GSE283096_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:06:20,909 - INFO - No suitable gene expression data in series 2 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:06:28,716 - INFO - Family file GSE283315_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:06:28,717 - INFO - No suitable gene expression data in series 3 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:06:44,937 - INFO - Family file GSE230559_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:06:44,937 - INFO - No suitable gene expression data in series 4 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:06:57,254 - INFO - Family file GSE297413_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:06:57,254 - INFO - No suitable gene expression data in series 5 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:07:17,755 - INFO - Family file GSE275299_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:07:17,756 - INFO - No suitable gene expression data in series 6 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:07:34,734 - INFO - Family file GSE271406_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:07:34,734 - INFO - No suitable gene expression data in series 7 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:07:42,921 - INFO - Family file GSE295715_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:07:42,921 - INFO - No suitable gene expression data in series 8 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:07:51,461 - INFO - Family file GSE232130_family.soft.gz is available with size 0.05 MB
-2025-06-06 15:07:51,461 - INFO - No suitable gene expression data in series 9 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:07:58,895 - INFO - Family file GSE232129_family.soft.gz is available with size 0.03 MB
-2025-06-06 15:07:58,895 - INFO - No suitable gene expression data in series 10 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:08:09,484 - INFO - Family file GSE221008_family.soft.gz is available with size 0.02 MB
-2025-06-06 15:08:09,484 - INFO - No suitable gene expression data in series 11 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:08:18,178 - INFO - Family file GSE270550_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:08:18,178 - INFO - No suitable gene expression data in series 12 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:08:26,683 - INFO - Family file GSE260773_family.soft.gz is available with size 0.00 MB
-2025-06-06 15:08:26,683 - INFO - No suitable gene expression data in series 13 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:08:36,394 - INFO - Family file GSE274836_family.soft.gz is available with size 0.01 MB
-2025-06-06 15:08:36,394 - INFO - No suitable gene expression data in series 14 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-06 15:08:44,368 - INFO - 
-Processing trait (2/132): Adrenocortical_Cancer
-2025-06-06 15:08:44,368 - INFO - Search query: (30:10000[Number of Samples]) AND ("Homo sapiens"[Organism]) AND (2010:2025[Publication Date]) AND (Adrenocortical_Cancer) AND ("expression profiling by array"[DataSet Type] OR "expression profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by snp array"[DataSet Type] OR "snp genotyping by snp array"[DataSet Type] OR "third party reanalysis"[DataSet Type])

download/logs/geo_download_20250607_000752.log

@@ -1,460 +0,0 @@
-2025-06-07 00:07:52,375 - INFO - Found 132 keywords to process
-2025-06-07 00:07:52,375 - INFO - Keywords: ['Acute_Myeloid_Leukemia', 'Adrenocortical_Cancer', 'Age-Related_Macular_Degeneration', 'Alcohol_Flush_Reaction', 'Allergies', 'Alopecia', 'Alzheimers_Disease', 'Amyotrophic_Lateral_Sclerosis', 'Angelman_Syndrome', 'Aniridia', 'Ankylosing_Spondylitis', 'Anorexia_Nervosa', 'Anxiety_disorder', 'Arrhythmia', 'Asthma', 'Atherosclerosis', 'Atrial_Fibrillation', 'Autism_spectrum_disorder_(ASD)', 'Autoinflammatory_Disorders', 'Bile_Duct_Cancer', 'Bipolar_disorder', 'Bladder_Cancer', 'Bone_Density', 'Breast_Cancer', 'Brugada_Syndrome', 'COVID-19', 'Canavan_Disease', 'Cardiovascular_Disease', 'Celiac_Disease', 'Cervical_Cancer', 'Chronic_Fatigue_Syndrome', 'Chronic_kidney_disease', 'Chronic_obstructive_pulmonary_disease_(COPD)', 'Colon_and_Rectal_Cancer', 'Congestive_heart_failure', 'Coronary_artery_disease', 'Craniosynostosis', 'Creutzfeldt-Jakob_Disease', 'Crohns_Disease', 'Cystic_Fibrosis', 'Depression', 'Duchenne_Muscular_Dystrophy', 'Eczema', 'Endometrioid_Cancer', 'Endometriosis', 'Epilepsy', 'Esophageal_Cancer', 'Essential_Thrombocythemia', 'Fibromyalgia', 'Gastroesophageal_reflux_disease_(GERD)', 'Gaucher_Disease', 'Generalized_Anxiety_Disorder', 'Glioblastoma', 'Glucocorticoid_Sensitivity', 'HIV_Resistance', 'Head_and_Neck_Cancer', 'Heart_rate', 'Height', 'Hemochromatosis', 'Hepatitis', 'High-Density_Lipoprotein_Deficiency', 'Huntingtons_Disease', 'Hutchinson-Gilford_Progeria_Syndrome', 'Hypertension', 'Hypertrophic_Cardiomyopathy', 'Hypothyroidism', 'Insomnia', 'Intellectual_Disability', 'Irritable_bowel_syndrome_(IBS)', 'Kidney_Chromophobe', 'Kidney_Clear_Cell_Carcinoma', 'Kidney_Papillary_Cell_Carcinoma', 'Kidney_stones', 'LDL_Cholesterol_Levels', 'Lactose_Intolerance', 'Large_B-cell_Lymphoma', 'Liver_Cancer', 'Liver_cirrhosis', 'Longevity', 'Lower_Grade_Glioma', 'Lung_Cancer', 'Lupus_(Systemic_Lupus_Erythematosus)', 'Melanoma', 'Mesothelioma', 'Metabolic_Rate', 'Migraine', 'Mitochondrial_Disorders', 'Multiple_Endocrine_Neoplasia_Type_2', 'Multiple_sclerosis', 'Obesity', 'Obsessive-Compulsive_Disorder', 'Obstructive_sleep_apnea', 'Ocular_Melanomas', 'Osteoarthritis', 'Osteoporosis', 'Ovarian_Cancer', 'Pancreatic_Cancer', 'Parkinsons_Disease', 'Peptic_ulcer_disease', 'Pheochromocytoma_and_Paraganglioma', 'Polycystic_Kidney_Disease', 'Polycystic_Ovary_Syndrome', 'Post-Traumatic_Stress_Disorder', 'Prostate_Cancer', 'Psoriasis', 'Psoriatic_Arthritis', 'Rectal_Cancer', 'Red_Hair', 'Retinoblastoma', 'Rheumatoid_Arthritis', 'Sarcoma', 'Schizophrenia', 'Sickle_Cell_Anemia', 'Sjögrens_Syndrome', 'Stomach_Cancer', 'Stroke', 'Substance_Use_Disorder', 'Telomere_Length', 'Testicular_Cancer', 'Thymoma', 'Thyroid_Cancer', 'Type_1_Diabetes', 'Type_2_Diabetes', 'Underweight', 'Uterine_Carcinosarcoma', 'Uterine_Corpus_Endometrial_Carcinoma', 'Vitamin_D_Levels', 'Von_Hippel_Lindau', 'Von_Willebrand_Disease', 'Werner_Syndrome', 'X-Linked_Lymphoproliferative_Syndrome', 'lower_grade_glioma_and_glioblastoma']
-2025-06-07 00:07:52,375 - INFO - Resuming from checkpoint: i=0, j=0
-2025-06-07 00:07:52,377 - INFO - 
-Processing trait (1/132): Acute_Myeloid_Leukemia
-2025-06-07 00:07:52,377 - INFO - Search query: (30:10000[Number of Samples]) AND ("Homo sapiens"[Organism]) AND (2010:2025[Publication Date]) AND (Acute_Myeloid_Leukemia) AND ("expression profiling by array"[DataSet Type] OR "expression profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by snp array"[DataSet Type] OR "snp genotyping by snp array"[DataSet Type] OR "third party reanalysis"[DataSet Type])
-2025-06-07 00:07:53,314 - INFO - Total results for query: 407
-2025-06-07 00:07:53,314 - INFO - Limiting results to user-specified maximum: 200
-2025-06-07 00:07:53,314 - INFO - Fetching batch 1 of 2 (size: 100)
-2025-06-07 00:07:54,025 - INFO - Successfully retrieved 100 IDs in batch 1
-2025-06-07 00:07:54,526 - INFO - Fetching batch 2 of 2 (size: 100)
-2025-06-07 00:07:54,948 - INFO - Successfully retrieved 100 IDs in batch 2
-2025-06-07 00:07:54,948 - INFO - Found 200 datasets for: Acute_Myeloid_Leukemia
-2025-06-07 00:08:36,440 - INFO - Successfully processed 200 datasets for: Acute_Myeloid_Leukemia
-2025-06-07 00:08:36,677 - INFO - Resuming from checkpoint: i=0, j=0
-2025-06-07 00:08:44,627 - INFO - Family file GSE283532_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:08:44,627 - INFO - No suitable gene expression data in series 0 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:08:49,268 - INFO - Family file GSE283531_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:08:49,268 - INFO - No suitable gene expression data in series 1 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:08:52,092 - INFO - Family file GSE283096_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:08:52,092 - INFO - No suitable gene expression data in series 2 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:08:53,589 - INFO - Family file GSE283315_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:08:53,589 - INFO - No suitable gene expression data in series 3 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:08:55,756 - INFO - Family file GSE230559_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:08:55,756 - INFO - No suitable gene expression data in series 4 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:08:57,553 - INFO - Family file GSE297413_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:08:57,553 - INFO - No suitable gene expression data in series 5 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:08:59,630 - INFO - Family file GSE275299_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:08:59,630 - INFO - No suitable gene expression data in series 6 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:01,401 - INFO - Family file GSE271406_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:01,401 - INFO - No suitable gene expression data in series 7 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:02,968 - INFO - Family file GSE295715_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:02,969 - INFO - No suitable gene expression data in series 8 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:05,039 - INFO - Family file GSE232130_family.soft.gz is available with size 0.05 MB
-2025-06-07 00:09:05,039 - INFO - No suitable gene expression data in series 9 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:06,999 - INFO - Family file GSE232129_family.soft.gz is available with size 0.03 MB
-2025-06-07 00:09:06,999 - INFO - No suitable gene expression data in series 10 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:09,222 - INFO - Family file GSE221008_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:09:09,222 - INFO - No suitable gene expression data in series 11 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:11,025 - INFO - Family file GSE270550_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:11,026 - INFO - No suitable gene expression data in series 12 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:12,908 - INFO - Family file GSE260773_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:09:12,908 - INFO - No suitable gene expression data in series 13 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:16,974 - INFO - Family file GSE274836_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:16,974 - INFO - No suitable gene expression data in series 14 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:21,970 - INFO - Family file GSE255808_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:21,970 - INFO - No suitable gene expression data in series 15 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:27,115 - INFO - Family file GSE286033_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:27,115 - INFO - No suitable gene expression data in series 16 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:29,246 - INFO - Family file GSE286032_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:29,247 - INFO - No suitable gene expression data in series 17 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:31,345 - INFO - Family file GSE285258_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:31,345 - INFO - No suitable gene expression data in series 18 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:32,191 - INFO - Family file GSE201822_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:32,191 - INFO - No suitable gene expression data in series 19 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:34,045 - INFO - Family file GSE223792_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:34,045 - INFO - No suitable gene expression data in series 20 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:35,409 - INFO - Family file GSE252945_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:35,409 - INFO - No suitable gene expression data in series 21 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:37,600 - INFO - Family file GSE283710_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:37,601 - INFO - No suitable gene expression data in series 22 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:39,967 - INFO - Family file GSE249080_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:09:39,967 - INFO - No suitable gene expression data in series 23 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:42,932 - INFO - Family file GSE228760_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:42,932 - INFO - No suitable gene expression data in series 24 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:46,445 - INFO - Family file GSE246783_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:46,445 - INFO - No suitable gene expression data in series 25 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:49,000 - INFO - Family file GSE272123_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:09:49,000 - INFO - No suitable gene expression data in series 26 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:09:51,944 - INFO - Matrix file GSE249638_series_matrix.txt.gz is available with size 8.53 MB
-2025-06-07 00:09:53,431 - INFO - Family file GSE249638_family.soft.gz is available with size 29.96 MB
-2025-06-07 00:10:17,540 - INFO - Successfully downloaded: GSE249638_series_matrix.txt.gz
-2025-06-07 00:11:07,692 - INFO - Successfully downloaded: GSE249638_family.soft.gz
-2025-06-07 00:11:07,692 - INFO - Downloaded: ['GSE249638_series_matrix.txt.gz'] and ['GSE249638_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:11:10,287 - INFO - Family file GSE230423_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:11:10,287 - INFO - No suitable gene expression data in series 28 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:11:14,371 - INFO - Family file GSE270185_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:11:14,372 - INFO - No suitable gene expression data in series 29 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:11:19,593 - INFO - Family file GSE267389_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:11:19,593 - INFO - No suitable gene expression data in series 30 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:11:24,337 - INFO - Family file GSE272681_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:11:24,337 - INFO - No suitable gene expression data in series 31 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:11:28,744 - INFO - Family file GSE231814_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:11:28,744 - INFO - No suitable gene expression data in series 32 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:11:30,447 - INFO - Matrix file GSE98578_series_matrix.txt.gz is available with size 13.82 MB
-2025-06-07 00:11:31,272 - INFO - Family file GSE98578_family.soft.gz is available with size 32.37 MB
-2025-06-07 00:11:36,098 - INFO - Successfully downloaded: GSE98578_series_matrix.txt.gz
-2025-06-07 00:11:44,510 - INFO - Successfully downloaded: GSE98578_family.soft.gz
-2025-06-07 00:11:44,510 - INFO - Downloaded: ['GSE98578_series_matrix.txt.gz'] and ['GSE98578_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:12:04,273 - INFO - Family file GSE268035_family.soft.gz is available with size 0.04 MB
-2025-06-07 00:12:04,273 - INFO - No suitable gene expression data in series 34 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:12:11,116 - INFO - Family file GSE267679_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:12:11,116 - INFO - No suitable gene expression data in series 35 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:12:18,947 - INFO - Matrix file GSE235070-GPL23159_series_matrix.txt.gz is available with size 1.97 MB
-2025-06-07 00:12:20,519 - INFO - Family file GSE235070_family.soft.gz is available with size 11.10 MB
-2025-06-07 00:12:24,204 - INFO - Successfully downloaded: GSE235070-GPL23159_series_matrix.txt.gz
-2025-06-07 00:12:37,345 - INFO - Successfully downloaded: GSE235070_family.soft.gz
-2025-06-07 00:12:37,345 - INFO - Downloaded: ['GSE235070-GPL23159_series_matrix.txt.gz'] and ['GSE235070_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:12:40,788 - INFO - Family file GSE241581_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:12:40,788 - INFO - No suitable gene expression data in series 37 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:12:46,016 - INFO - Family file GSE219230_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:12:46,016 - INFO - No suitable gene expression data in series 38 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:12:51,552 - INFO - Family file GSE253753_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:12:51,552 - INFO - No suitable gene expression data in series 39 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:12:54,701 - INFO - Family file GSE172333_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:12:54,701 - INFO - No suitable gene expression data in series 40 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:12:58,418 - INFO - Family file GSE266099_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:12:58,418 - INFO - No suitable gene expression data in series 41 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:01,389 - INFO - Family file GSE242259_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:13:01,389 - INFO - No suitable gene expression data in series 42 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:04,163 - INFO - Family file GSE215083_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:04,163 - INFO - No suitable gene expression data in series 43 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:06,554 - INFO - Family file GSE190785_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:13:06,555 - INFO - No suitable gene expression data in series 44 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:08,391 - INFO - Family file GSE252938_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:08,391 - INFO - No suitable gene expression data in series 45 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:09,155 - INFO - Family file GSE190738_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:09,155 - INFO - No suitable gene expression data in series 46 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:11,060 - INFO - Family file GSE228298_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:13:11,060 - INFO - No suitable gene expression data in series 47 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:14,144 - INFO - Family file GSE253086_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:14,144 - INFO - No suitable gene expression data in series 48 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:20,088 - INFO - Family file GSE229032_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:20,088 - INFO - No suitable gene expression data in series 49 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:21,267 - INFO - Family file GSE163192_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:13:21,267 - INFO - No suitable gene expression data in series 50 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:28,856 - INFO - Family file GSE225391_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:28,856 - INFO - No suitable gene expression data in series 51 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:38,183 - INFO - Family file GSE248581_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:13:38,183 - INFO - No suitable gene expression data in series 52 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:45,830 - INFO - Family file GSE235063_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:45,831 - INFO - No suitable gene expression data in series 53 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:53,754 - INFO - Family file GSE226688_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:53,754 - INFO - No suitable gene expression data in series 54 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:13:59,968 - INFO - Family file GSE217829_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:13:59,969 - INFO - No suitable gene expression data in series 55 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:04,582 - INFO - Family file GSE217572_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:04,582 - INFO - No suitable gene expression data in series 56 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:08,870 - INFO - Family file GSE223844_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:08,870 - INFO - No suitable gene expression data in series 57 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:09,727 - INFO - Family file GSE181338_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:09,728 - INFO - No suitable gene expression data in series 58 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:10,605 - INFO - Family file GSE180565_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:10,605 - INFO - No suitable gene expression data in series 59 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:12,328 - INFO - Family file GSE245191_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:12,328 - INFO - No suitable gene expression data in series 60 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:14,702 - INFO - Family file GSE215928_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:14,702 - INFO - No suitable gene expression data in series 61 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:15,429 - INFO - Family file GSE172240_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:15,429 - INFO - No suitable gene expression data in series 62 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:16,161 - INFO - Family file GSE172238_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:16,161 - INFO - No suitable gene expression data in series 63 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:18,321 - INFO - Family file GSE243621_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:18,321 - INFO - No suitable gene expression data in series 64 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:19,655 - INFO - Family file GSE239960_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:19,656 - INFO - No suitable gene expression data in series 65 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:21,765 - INFO - Family file GSE241450_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:21,765 - INFO - No suitable gene expression data in series 66 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:23,304 - INFO - Family file GSE239678_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:23,304 - INFO - No suitable gene expression data in series 67 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:25,096 - INFO - Family file GSE235923_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:25,096 - INFO - No suitable gene expression data in series 68 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:25,830 - INFO - Family file GSE209777_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:25,830 - INFO - No suitable gene expression data in series 69 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:26,565 - INFO - Family file GSE209772_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:26,565 - INFO - No suitable gene expression data in series 70 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:27,495 - INFO - Family file GSE204845_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:27,496 - INFO - No suitable gene expression data in series 71 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:29,052 - INFO - Family file GSE220134_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:29,052 - INFO - No suitable gene expression data in series 72 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:30,934 - INFO - Family file GSE220126_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:30,934 - INFO - No suitable gene expression data in series 73 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:34,931 - INFO - Family file GSE240579_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:34,931 - INFO - No suitable gene expression data in series 74 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:37,598 - INFO - Family file GSE202107_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:37,598 - INFO - No suitable gene expression data in series 75 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:41,257 - INFO - Family file GSE208022_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:41,257 - INFO - No suitable gene expression data in series 76 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:44,430 - INFO - Family file GSE213795_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:44,430 - INFO - No suitable gene expression data in series 77 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:46,987 - INFO - Family file GSE213793_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:46,987 - INFO - No suitable gene expression data in series 78 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:48,964 - INFO - Family file GSE176524_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:14:48,964 - INFO - No suitable gene expression data in series 79 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:49,694 - INFO - Family file GSE176523_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:49,694 - INFO - No suitable gene expression data in series 80 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:14:50,435 - INFO - Family file GSE176522_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:14:50,435 - INFO - No suitable gene expression data in series 81 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:03,272 - INFO - Family file GSE232559_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:15:03,272 - INFO - No suitable gene expression data in series 82 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:04,790 - INFO - Family file GSE198518_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:15:04,790 - INFO - No suitable gene expression data in series 83 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:05,649 - INFO - Family file GSE198986_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:15:05,649 - INFO - No suitable gene expression data in series 84 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:06,445 - INFO - Family file GSE205714_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:15:06,445 - INFO - No suitable gene expression data in series 85 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:21,743 - INFO - Family file GSE227269_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:15:21,743 - INFO - No suitable gene expression data in series 86 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:24,838 - INFO - Family file GSE192775_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:15:24,838 - INFO - No suitable gene expression data in series 87 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:28,613 - INFO - Family file GSE192779_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:15:28,613 - INFO - No suitable gene expression data in series 88 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:30,854 - INFO - Family file GSE152431_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:15:30,854 - INFO - No suitable gene expression data in series 89 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:41,635 - INFO - Family file GSE222903_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:15:41,635 - INFO - No suitable gene expression data in series 90 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:15:49,773 - INFO - Family file GSE220605_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:15:49,773 - INFO - No suitable gene expression data in series 91 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:16:06,147 - INFO - Family file GSE228326_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:16:06,147 - INFO - No suitable gene expression data in series 92 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:16:33,409 - INFO - Family file GSE229314_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:16:33,409 - INFO - No suitable gene expression data in series 93 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:16:51,204 - INFO - Family file GSE227839_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:16:51,205 - INFO - No suitable gene expression data in series 94 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:17:14,886 - INFO - Matrix file GSE222169_series_matrix.txt.gz is available with size 3.14 MB
-2025-06-07 00:17:19,429 - INFO - Family file GSE222169_family.soft.gz is available with size 12.85 MB
-2025-06-07 00:17:32,211 - INFO - Successfully downloaded: GSE222169_series_matrix.txt.gz
-2025-06-07 00:18:13,371 - INFO - Successfully downloaded: GSE222169_family.soft.gz
-2025-06-07 00:18:13,371 - INFO - Downloaded: ['GSE222169_series_matrix.txt.gz'] and ['GSE222169_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:18:20,968 - INFO - Matrix file GSE222616_series_matrix.txt.gz is available with size 4.47 MB
-2025-06-07 00:18:23,644 - INFO - Family file GSE222616_family.soft.gz is available with size 19.69 MB
-2025-06-07 00:18:31,750 - INFO - Successfully downloaded: GSE222616_series_matrix.txt.gz
-2025-06-07 00:18:50,991 - INFO - Successfully downloaded: GSE222616_family.soft.gz
-2025-06-07 00:18:50,991 - INFO - Downloaded: ['GSE222616_series_matrix.txt.gz'] and ['GSE222616_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:18:51,800 - INFO - Family file GSE185991_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:18:51,800 - INFO - No suitable gene expression data in series 97 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:18:52,526 - INFO - Family file GSE185824_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:18:52,526 - INFO - No suitable gene expression data in series 98 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:18:53,415 - INFO - Family file GSE185993_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:18:53,415 - INFO - No suitable gene expression data in series 99 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:18:55,496 - INFO - Family file GSE224325_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:18:55,496 - INFO - No suitable gene expression data in series 100 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:18:56,232 - INFO - Family file GSE196480_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:18:56,232 - INFO - No suitable gene expression data in series 101 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:18:58,460 - INFO - Family file GSE217537_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:18:58,460 - INFO - No suitable gene expression data in series 102 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:19:00,491 - INFO - Family file GSE222886_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:19:00,491 - INFO - No suitable gene expression data in series 103 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:19:04,167 - INFO - Matrix file GSE222124_series_matrix.txt.gz is available with size 12.41 MB
-2025-06-07 00:19:06,040 - INFO - Family file GSE222124_family.soft.gz is available with size 34.24 MB
-2025-06-07 00:19:15,947 - INFO - Successfully downloaded: GSE222124_series_matrix.txt.gz
-2025-06-07 00:20:22,439 - INFO - Successfully downloaded: GSE222124_family.soft.gz
-2025-06-07 00:20:22,439 - INFO - Downloaded: ['GSE222124_series_matrix.txt.gz'] and ['GSE222124_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:20:23,517 - INFO - Family file GSE196469_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:20:23,517 - INFO - No suitable gene expression data in series 105 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:20:44,728 - INFO - Family file GSE221701_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:20:44,728 - INFO - No suitable gene expression data in series 106 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:20:53,740 - INFO - Family file GSE217690_family.soft.gz is available with size 0.07 MB
-2025-06-07 00:20:53,740 - INFO - No suitable gene expression data in series 107 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:20:56,774 - INFO - Family file GSE209713_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:20:56,774 - INFO - No suitable gene expression data in series 108 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:03,356 - INFO - Family file GSE218664_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:21:03,356 - INFO - No suitable gene expression data in series 109 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:06,014 - INFO - Family file GSE201492_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:21:06,014 - INFO - No suitable gene expression data in series 110 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:09,256 - INFO - Family file GSE184728_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:21:09,256 - INFO - No suitable gene expression data in series 111 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:12,149 - INFO - Family file GSE184722_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:21:12,149 - INFO - No suitable gene expression data in series 112 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:14,854 - INFO - Family file GSE208218_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:21:14,854 - INFO - No suitable gene expression data in series 113 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:18,353 - INFO - Family file GSE186711_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:21:18,354 - INFO - No suitable gene expression data in series 114 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:20,533 - ERROR - Error processing series 115: 
-Traceback (most recent call last):
-  File "/media/techt/DATA/GenoTEX/download/download_GEO_data.py", line 330, in download_trait_data
-    family_file_list = ftp.nlst()
-  File "/home/techt/anaconda3/envs/agent/lib/python3.10/ftplib.py", line 553, in nlst
-    self.retrlines(cmd, files.append)
-  File "/home/techt/anaconda3/envs/agent/lib/python3.10/ftplib.py", line 462, in retrlines
-    with self.transfercmd(cmd) as conn, \
-  File "/home/techt/anaconda3/envs/agent/lib/python3.10/ftplib.py", line 393, in transfercmd
-    return self.ntransfercmd(cmd, rest)[0]
-  File "/home/techt/anaconda3/envs/agent/lib/python3.10/ftplib.py", line 359, in ntransfercmd
-    resp = self.sendcmd(cmd)
-  File "/home/techt/anaconda3/envs/agent/lib/python3.10/ftplib.py", line 281, in sendcmd
-    return self.getresp()
-  File "/home/techt/anaconda3/envs/agent/lib/python3.10/ftplib.py", line 244, in getresp
-    resp = self.getmultiline()
-  File "/home/techt/anaconda3/envs/agent/lib/python3.10/ftplib.py", line 230, in getmultiline
-    line = self.getline()
-  File "/home/techt/anaconda3/envs/agent/lib/python3.10/ftplib.py", line 218, in getline
-    raise EOFError
-EOFError
-
-2025-06-07 00:21:26,939 - INFO - Family file GSE217587_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:21:26,939 - INFO - No suitable gene expression data in series 116 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:34,749 - INFO - Family file GSE217113_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:21:34,749 - INFO - No suitable gene expression data in series 117 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:36,727 - INFO - Family file GSE131325_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:21:36,727 - INFO - No suitable gene expression data in series 118 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:38,941 - INFO - Family file GSE211095_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:21:38,941 - INFO - No suitable gene expression data in series 119 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:41,883 - INFO - Family file GSE185381_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:21:41,883 - INFO - No suitable gene expression data in series 120 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:44,059 - INFO - Family file GSE195779_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:21:44,059 - INFO - No suitable gene expression data in series 121 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:46,036 - INFO - Family file GSE195777_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:21:46,036 - INFO - No suitable gene expression data in series 122 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:21:57,778 - INFO - Family file GSE216738_family.soft.gz is available with size 0.03 MB
-2025-06-07 00:21:57,778 - INFO - No suitable gene expression data in series 123 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:00,303 - INFO - Family file GSE211619_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:00,303 - INFO - No suitable gene expression data in series 124 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:03,072 - INFO - Family file GSE202230_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:22:03,072 - INFO - No suitable gene expression data in series 125 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:13,229 - INFO - Family file GSE215836_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:22:13,229 - INFO - No suitable gene expression data in series 126 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:16,871 - INFO - Family file GSE195497_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:16,871 - INFO - No suitable gene expression data in series 127 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:19,496 - INFO - Family file GSE185094_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:19,496 - INFO - No suitable gene expression data in series 128 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:21,098 - INFO - Family file GSE213957_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:21,098 - INFO - No suitable gene expression data in series 129 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:21,838 - INFO - Family file GSE190542_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:22:21,839 - INFO - No suitable gene expression data in series 130 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:22,574 - INFO - Family file GSE186132_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:22,575 - INFO - No suitable gene expression data in series 131 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:23,305 - INFO - Family file GSE192638_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:22:23,305 - INFO - No suitable gene expression data in series 132 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:24,186 - INFO - Family file GSE211054_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:24,186 - INFO - No suitable gene expression data in series 133 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:24,982 - INFO - Family file GSE211052_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:22:24,982 - INFO - No suitable gene expression data in series 134 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:25,784 - INFO - Family file GSE160768_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:25,784 - INFO - No suitable gene expression data in series 135 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:26,517 - INFO - Family file GSE209822_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:22:26,518 - INFO - No suitable gene expression data in series 136 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:27,388 - INFO - Family file GSE152136_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:22:27,388 - INFO - No suitable gene expression data in series 137 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:28,123 - INFO - Family file GSE199947_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:28,123 - INFO - No suitable gene expression data in series 138 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:28,631 - INFO - Matrix file GSE99612_series_matrix.txt.gz is available with size 6.08 MB
-2025-06-07 00:22:28,917 - INFO - Family file GSE99612_family.soft.gz is available with size 16.98 MB
-2025-06-07 00:22:29,711 - INFO - Successfully downloaded: GSE99612_series_matrix.txt.gz
-2025-06-07 00:22:36,371 - INFO - Successfully downloaded: GSE99612_family.soft.gz
-2025-06-07 00:22:36,371 - INFO - Downloaded: ['GSE99612_series_matrix.txt.gz'] and ['GSE99612_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:22:37,357 - INFO - Family file GSE182150_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:37,357 - INFO - No suitable gene expression data in series 140 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:38,136 - INFO - Family file GSE168649_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:38,136 - INFO - No suitable gene expression data in series 141 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:38,876 - INFO - Family file GSE199452_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:38,876 - INFO - No suitable gene expression data in series 142 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:39,665 - INFO - Family file GSE199336_family.soft.gz is available with size 0.02 MB
-2025-06-07 00:22:39,665 - INFO - No suitable gene expression data in series 143 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:40,593 - INFO - Family file GSE171029_family.soft.gz is available with size 0.03 MB
-2025-06-07 00:22:40,593 - INFO - No suitable gene expression data in series 144 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:41,387 - INFO - Family file GSE171027_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:41,387 - INFO - No suitable gene expression data in series 145 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:42,240 - INFO - Family file GSE195620_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:42,240 - INFO - No suitable gene expression data in series 146 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:42,964 - INFO - Family file GSE168463_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:42,964 - INFO - No suitable gene expression data in series 147 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:43,687 - INFO - Family file GSE168462_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:43,687 - INFO - No suitable gene expression data in series 148 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:44,463 - INFO - Family file GSE188292_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:22:44,463 - INFO - No suitable gene expression data in series 149 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:45,255 - INFO - Family file GSE167869_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:45,255 - INFO - No suitable gene expression data in series 150 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:46,165 - INFO - Family file GSE197387_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:46,165 - INFO - No suitable gene expression data in series 151 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:47,017 - INFO - Family file GSE165049_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:47,017 - INFO - No suitable gene expression data in series 152 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:47,748 - INFO - Family file GSE195471_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:47,748 - INFO - No suitable gene expression data in series 153 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:48,485 - INFO - Family file GSE190511_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:22:48,485 - INFO - No suitable gene expression data in series 154 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:22:49,012 - INFO - Matrix file GSE121431-GPL16043_series_matrix.txt.gz is available with size 7.00 MB
-2025-06-07 00:22:49,271 - INFO - Family file GSE121431_family.soft.gz is available with size 18.46 MB
-2025-06-07 00:22:53,066 - INFO - Successfully downloaded: GSE121431-GPL16043_series_matrix.txt.gz
-2025-06-07 00:22:59,188 - INFO - Successfully downloaded: GSE121431_family.soft.gz
-2025-06-07 00:22:59,188 - INFO - Downloaded: ['GSE121431-GPL16043_series_matrix.txt.gz'] and ['GSE121431_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:22:59,662 - INFO - Matrix file GSE121291_series_matrix.txt.gz is available with size 7.00 MB
-2025-06-07 00:22:59,924 - INFO - Family file GSE121291_family.soft.gz is available with size 18.46 MB
-2025-06-07 00:23:03,565 - INFO - Successfully downloaded: GSE121291_series_matrix.txt.gz
-2025-06-07 00:23:07,669 - INFO - Successfully downloaded: GSE121291_family.soft.gz
-2025-06-07 00:23:07,669 - INFO - Downloaded: ['GSE121291_series_matrix.txt.gz'] and ['GSE121291_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:23:08,469 - INFO - Family file GSE150555_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:23:08,469 - INFO - No suitable gene expression data in series 157 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:23:09,257 - INFO - Family file GSE183415_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:23:09,258 - INFO - No suitable gene expression data in series 158 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:23:09,977 - INFO - Family file GSE157632_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:23:09,977 - INFO - No suitable gene expression data in series 159 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:23:10,758 - INFO - Family file GSE159693_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:23:10,758 - INFO - No suitable gene expression data in series 160 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:23:11,500 - INFO - Family file GSE153865_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:23:11,500 - INFO - No suitable gene expression data in series 161 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:23:12,213 - INFO - Family file GSE165656_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:23:12,213 - INFO - No suitable gene expression data in series 162 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:23:12,992 - INFO - Family file GSE84157_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:23:12,992 - INFO - No suitable gene expression data in series 163 (200 series for trait Acute_Myeloid_Leukemia in total)
-2025-06-07 00:23:13,452 - INFO - Matrix file GSE161532_series_matrix.txt.gz is available with size 22.45 MB
-2025-06-07 00:23:13,714 - INFO - Family file GSE161532_family.soft.gz is available with size 49.47 MB
-2025-06-07 00:23:21,385 - INFO - Successfully downloaded: GSE161532_series_matrix.txt.gz
-2025-06-07 00:23:36,558 - INFO - Successfully downloaded: GSE161532_family.soft.gz
-2025-06-07 00:23:36,558 - INFO - Downloaded: ['GSE161532_series_matrix.txt.gz'] and ['GSE161532_family.soft.gz'] for trait Acute_Myeloid_Leukemia
-2025-06-07 00:23:36,593 - INFO - 
-Processing trait (2/132): Adrenocortical_Cancer
-2025-06-07 00:23:36,593 - INFO - Search query: (30:10000[Number of Samples]) AND ("Homo sapiens"[Organism]) AND (2010:2025[Publication Date]) AND (Adrenocortical_Cancer) AND ("expression profiling by array"[DataSet Type] OR "expression profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by snp array"[DataSet Type] OR "snp genotyping by snp array"[DataSet Type] OR "third party reanalysis"[DataSet Type])
-2025-06-07 00:23:36,885 - INFO - Total results for query: 24
-2025-06-07 00:23:36,886 - INFO - Fetching batch 1 of 1 (size: 24)
-2025-06-07 00:23:37,075 - INFO - Successfully retrieved 24 IDs in batch 1
-2025-06-07 00:23:37,075 - INFO - Found 24 datasets for: Adrenocortical_Cancer
-2025-06-07 00:23:41,981 - INFO - Successfully processed 24 datasets for: Adrenocortical_Cancer
-2025-06-07 00:23:42,128 - INFO - Resuming from checkpoint: i=1, j=0
-2025-06-07 00:23:53,433 - INFO - Family file GSE288482_family.soft.gz is available with size 0.00 MB
-2025-06-07 00:23:53,433 - INFO - No suitable gene expression data in series 0 (24 series for trait Adrenocortical_Cancer in total)
-2025-06-07 00:23:57,192 - INFO - Family file GSE205283_family.soft.gz is available with size 81.86 MB
-2025-06-07 00:23:57,193 - INFO - No suitable gene expression data in series 1 (24 series for trait Adrenocortical_Cancer in total)
-2025-06-07 00:23:59,001 - INFO - Matrix file GSE143383_series_matrix.txt.gz is available with size 10.14 MB
-2025-06-07 00:23:59,859 - INFO - Family file GSE143383_family.soft.gz is available with size 26.20 MB
-2025-06-07 00:24:02,136 - INFO - Successfully downloaded: GSE143383_series_matrix.txt.gz
-2025-06-07 00:24:09,529 - INFO - Successfully downloaded: GSE143383_family.soft.gz
-2025-06-07 00:24:09,530 - INFO - Downloaded: ['GSE143383_series_matrix.txt.gz'] and ['GSE143383_family.soft.gz'] for trait Adrenocortical_Cancer
-2025-06-07 00:24:10,255 - INFO - Family file GSE106873_family.soft.gz is available with size 0.01 MB
-2025-06-07 00:24:10,255 - INFO - No suitable gene expression data in series 3 (24 series for trait Adrenocortical_Cancer in total)
-2025-06-07 00:24:10,788 - INFO - Matrix file GSE108089-GPL570_series_matrix.txt.gz is available with size 12.41 MB
-2025-06-07 00:24:11,054 - INFO - No suitable gene expression data in series 4 (24 series for trait Adrenocortical_Cancer in total)
-2025-06-07 00:24:11,527 - INFO - Matrix file GSE108088_series_matrix.txt.gz is available with size 12.41 MB
-2025-06-07 00:24:11,789 - INFO - Family file GSE108088_family.soft.gz is available with size 30.18 MB
-2025-06-07 00:24:14,164 - INFO - Successfully downloaded: GSE108088_series_matrix.txt.gz
-2025-06-07 00:24:22,661 - INFO - Successfully downloaded: GSE108088_family.soft.gz
-2025-06-07 00:24:22,662 - INFO - Downloaded: ['GSE108088_series_matrix.txt.gz'] and ['GSE108088_family.soft.gz'] for trait Adrenocortical_Cancer
-2025-06-07 00:24:23,381 - INFO - No suitable gene expression data in series 6 (24 series for trait Adrenocortical_Cancer in total)
-2025-06-07 00:24:23,861 - INFO - Matrix file GSE90713_series_matrix.txt.gz is available with size 7.88 MB
-2025-06-07 00:24:24,118 - INFO - Family file GSE90713_family.soft.gz is available with size 55.46 MB
-2025-06-07 00:24:25,255 - INFO - Successfully downloaded: GSE90713_series_matrix.txt.gz
-2025-06-07 00:24:42,033 - INFO - Successfully downloaded: GSE90713_family.soft.gz
-2025-06-07 00:24:42,033 - INFO - Downloaded: ['GSE90713_series_matrix.txt.gz'] and ['GSE90713_family.soft.gz'] for trait Adrenocortical_Cancer
-2025-06-07 00:24:52,926 - INFO - Matrix file GSE76019_series_matrix.txt.gz is available with size 9.89 MB
-2025-06-07 00:24:57,126 - INFO - Family file GSE76019_family.soft.gz is available with size 23.54 MB
-2025-06-07 00:25:09,000 - INFO - Successfully downloaded: GSE76019_series_matrix.txt.gz
-2025-06-07 00:25:59,297 - INFO - Successfully downloaded: GSE76019_family.soft.gz
-2025-06-07 00:25:59,297 - INFO - Downloaded: ['GSE76019_series_matrix.txt.gz'] and ['GSE76019_family.soft.gz'] for trait Adrenocortical_Cancer
-2025-06-07 00:26:15,370 - INFO - Matrix file GSE75415_series_matrix.txt.gz is available with size 1.55 MB
-2025-06-07 00:26:18,339 - INFO - Family file GSE75415_family.soft.gz is available with size 10.43 MB
-2025-06-07 00:26:25,337 - INFO - Successfully downloaded: GSE75415_series_matrix.txt.gz
-2025-06-07 00:26:33,418 - INFO - Successfully downloaded: GSE75415_family.soft.gz
-2025-06-07 00:26:33,418 - INFO - Downloaded: ['GSE75415_series_matrix.txt.gz'] and ['GSE75415_family.soft.gz'] for trait Adrenocortical_Cancer
-2025-06-07 00:26:48,838 - INFO - Family file GSE66729_family.soft.gz is available with size 0.03 MB
-2025-06-07 00:26:48,838 - INFO - No suitable gene expression data in series 10 (24 series for trait Adrenocortical_Cancer in total)
-2025-06-07 00:27:06,546 - INFO - Family file GSE66728_family.soft.gz is available with size 0.03 MB
-2025-06-07 00:27:06,546 - INFO - No suitable gene expression data in series 11 (24 series for trait Adrenocortical_Cancer in total)
-2025-06-07 00:27:35,964 - INFO - Matrix file GSE68950_series_matrix.txt.gz is available with size 32.19 MB
-2025-06-07 00:27:42,311 - INFO - Family file GSE68950_family.soft.gz is available with size 83.51 MB
-2025-06-07 00:28:42,779 - INFO - Successfully downloaded: GSE68950_series_matrix.txt.gz
-2025-06-07 00:30:48,889 - INFO - Successfully downloaded: GSE68950_family.soft.gz
-2025-06-07 00:30:48,889 - INFO - Downloaded: ['GSE68950_series_matrix.txt.gz'] and ['GSE68950_family.soft.gz'] for trait Adrenocortical_Cancer
-2025-06-07 00:30:58,622 - INFO - Matrix file GSE68606_series_matrix.txt.gz is available with size 10.50 MB
-2025-06-07 00:31:02,887 - INFO - Family file GSE68606_family.soft.gz is available with size 31.17 MB
-2025-06-07 00:31:19,949 - INFO - Successfully downloaded: GSE68606_series_matrix.txt.gz
-2025-06-07 00:31:41,770 - INFO - Successfully downloaded: GSE68606_family.soft.gz
-2025-06-07 00:31:41,770 - INFO - Downloaded: ['GSE68606_series_matrix.txt.gz'] and ['GSE68606_family.soft.gz'] for trait Adrenocortical_Cancer
-2025-06-07 00:31:53,718 - INFO - Matrix file GSE67766-GPL10558_series_matrix.txt.gz is available with size 4.56 MB
-2025-06-07 00:31:56,838 - INFO - Matrix file GSE67766-GPL14622_series_matrix.txt.gz is available with size 14.23 MB
-2025-06-07 00:31:58,290 - INFO - Matrix file GSE67766-GPL6884_series_matrix.txt.gz is available with size 2.34 MB
-2025-06-07 00:32:02,854 - INFO - Family file GSE67766_family.soft.gz is available with size 82.80 MB
-2025-06-07 00:32:12,203 - INFO - Successfully downloaded: GSE67766-GPL10558_series_matrix.txt.gz
-2025-06-07 00:32:31,878 - INFO - 
-Processing trait (3/132): Age-Related_Macular_Degeneration
-2025-06-07 00:32:31,878 - INFO - Search query: (30:10000[Number of Samples]) AND ("Homo sapiens"[Organism]) AND (2010:2025[Publication Date]) AND (Age-Related_Macular_Degeneration) AND ("expression profiling by array"[DataSet Type] OR "expression profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by high throughput sequencing"[DataSet Type] OR "genome variation profiling by snp array"[DataSet Type] OR "snp genotyping by snp array"[DataSet Type] OR "third party reanalysis"[DataSet Type])

output/preprocess/Acute_Myeloid_Leukemia/GSE222616.csv

@@ -1,3 +0,0 @@
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-oid sha256:bd413d209d1ab2bda2db17d9e07edea8d4ec7e7bd82b6e222c14b6b53473cb9e
-size 13881630

output/preprocess/Acute_Myeloid_Leukemia/GSE98578.csv

@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
-oid sha256:da3b1805cb6773c07c1a969f1250e134efdda7b55efaa7af30b4e466935db099
-size 12728570

output/preprocess/Acute_Myeloid_Leukemia/clinical_data/GSE121291.csv

@@ -1,2 +0,0 @@
-row,value
-,0.0

output/preprocess/Acute_Myeloid_Leukemia/clinical_data/GSE121431.csv

@@ -1,2 +0,0 @@
-,GSM3430924,GSM3430925,GSM3430926,GSM3430927,GSM3430928,GSM3430929,GSM3430930,GSM3430931,GSM3430932,GSM3430933,GSM3430934,GSM3430935,GSM3430936,GSM3430937,GSM3430938,GSM3430939,GSM3430940,GSM3430941,GSM3430942,GSM3430943,GSM3430944,GSM3430945,GSM3430946,GSM3430947,GSM3430948,GSM3430949,GSM3430950,GSM3430951,GSM3430952,GSM3430953
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output/preprocess/Acute_Myeloid_Leukemia/clinical_data/GSE161532.csv

@@ -1,4 +0,0 @@
-,GSM4909492,GSM4909493,GSM4909494,GSM4909495,GSM4909496,GSM4909497,GSM4909498,GSM4909499,GSM4909500,GSM4909501,GSM4909502,GSM4909503,GSM4909504,GSM4909505,GSM4909506,GSM4909507,GSM4909508,GSM4909509,GSM4909510,GSM4909511,GSM4909512,GSM4909513,GSM4909514,GSM4909515,GSM4909516,GSM4909517,GSM4909518,GSM4909519,GSM4909520,GSM4909521,GSM4909522,GSM4909523,GSM4909524,GSM4909525,GSM4909526,GSM4909527,GSM4909528,GSM4909529,GSM4909530,GSM4909531,GSM4909532,GSM4909533,GSM4909534,GSM4909535,GSM4909536,GSM4909537,GSM4909538,GSM4909539,GSM4909540,GSM4909541,GSM4909542,GSM4909543,GSM4909544,GSM4909545,GSM4909546,GSM4909547,GSM4909548,GSM4909549,GSM4909550,GSM4909551,GSM4909552
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output/preprocess/Acute_Myeloid_Leukemia/clinical_data/GSE222169.csv

@@ -1,43 +0,0 @@
-,Acute_Myeloid_Leukemia
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output/preprocess/Acute_Myeloid_Leukemia/clinical_data/GSE222616.csv

@@ -1,2 +0,0 @@
-,GSM6927801,GSM6927802,GSM6927803,GSM6927804,GSM6927805,GSM6927806,GSM6927807,GSM6927808,GSM6927809,GSM6927810,GSM6927811,GSM6927812,GSM6927813,GSM6927814,GSM6927815,GSM6927816,GSM6927817,GSM6927818,GSM6927819,GSM6927820,GSM6927821,GSM6927822,GSM6927823,GSM6927824,GSM6927825,GSM6927826,GSM6927827,GSM6927828,GSM6927829,GSM6927830,GSM6927831,GSM6927832,GSM6927833,GSM6927834,GSM6927835,GSM6927836,GSM6927837,GSM6927838,GSM6927839,GSM6927840,GSM6927841,GSM6927842
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output/preprocess/Acute_Myeloid_Leukemia/clinical_data/GSE235070.csv

@@ -1,2 +0,0 @@
-,GSM7494217,GSM7494218,GSM7494219,GSM7494220,GSM7494221,GSM7494222,GSM7494223,GSM7494224,GSM7494249,GSM7494250,GSM7494251,GSM7494252,GSM7494253,GSM7494254,GSM7494255,GSM7494256,GSM7494509,GSM7494510,GSM7494511,GSM7494512,GSM7494513,GSM7494514,GSM7494515,GSM7494516,GSM7494517,GSM7494518,GSM7494519,GSM7494520,GSM7494521,GSM7494522,GSM7494523,GSM7494524
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output/preprocess/Acute_Myeloid_Leukemia/clinical_data/GSE98578.csv

@@ -1,2 +0,0 @@
-,GSM2601197,GSM2601198,GSM2601199,GSM2601200,GSM2601201,GSM2601202,GSM2601203,GSM2601204,GSM2601205,GSM2601206,GSM2601207,GSM2601208,GSM2601209,GSM2601210,GSM2601211,GSM2601212,GSM2601213,GSM2601214,GSM2601215,GSM2601216,GSM2601217,GSM2601218,GSM2601219,GSM2601220,GSM2601221,GSM2601222,GSM2601223,GSM2601224,GSM2601225,GSM2601226,GSM2601227,GSM2601228,GSM2601229,GSM2601230,GSM2601231,GSM2601232,GSM2601233,GSM2601234,GSM2601235,GSM2601236,GSM2601237,GSM2601238,GSM2601239,GSM2601240,GSM2601241,GSM2601242,GSM2601243,GSM2601244
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output/preprocess/Acute_Myeloid_Leukemia/clinical_data/TCGA.csv

@@ -1,201 +0,0 @@
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output/preprocess/Acute_Myeloid_Leukemia/gene_data/GSE222169.csv

@@ -1,3 +0,0 @@
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output/preprocess/Acute_Myeloid_Leukemia/gene_data/GSE222616.csv

@@ -1,3 +0,0 @@
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output/preprocess/Acute_Myeloid_Leukemia/gene_data/GSE98578.csv

@@ -1,3 +0,0 @@
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output/preprocess/Adrenocortical_Cancer/GSE68606.csv

@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
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output/preprocess/Adrenocortical_Cancer/TCGA.csv

@@ -1,3 +0,0 @@
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output/preprocess/Adrenocortical_Cancer/clinical_data/GSE108088.csv

@@ -1,2 +0,0 @@
-GSM2889381,GSM2889382,GSM2889383,GSM2889384,GSM2889385,GSM2889386,GSM2889387,GSM2889388,GSM2889389,GSM2889390,GSM2889391,GSM2889392,GSM2889393,GSM2889394,GSM2889395,GSM2889396,GSM2889397,GSM2889398,GSM2889399,GSM2889400,GSM2889401,GSM2889402,GSM2889403,GSM2889404,GSM2889405,GSM2889406,GSM2889407,GSM2889408,GSM2889409,GSM2889410,GSM2889411,GSM2889412,GSM2889413,GSM2889414,GSM2889415,GSM2889416,GSM2889417,GSM2889418,GSM2889419,GSM2889420,GSM2889421,GSM2889422,GSM2889423
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output/preprocess/Adrenocortical_Cancer/clinical_data/GSE143383.csv

@@ -1,64 +0,0 @@
-,Gender
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output/preprocess/Adrenocortical_Cancer/clinical_data/GSE19776.csv

@@ -1,4 +0,0 @@
-,GSM493903,GSM493904,GSM493905,GSM493906,GSM493907,GSM493908,GSM493909,GSM493910,GSM493911,GSM493912,GSM493913,GSM493914,GSM493915,GSM493916,GSM493917
-Adrenocortical_Cancer,0.0,1.0,0.0,0.0,0.0,0.0,1.0,0.0,0.0,0.0,,0.0,,,0.0
-Age,67.8,72.1,26.7,36.9,,53.2,37.0,54.2,67.3,27.7,,58.0,42.0,46.0,38.0
-Gender,1.0,1.0,0.0,0.0,0.0,1.0,0.0,0.0,0.0,0.0,1.0,0.0,1.0,0.0,1.0

output/preprocess/Adrenocortical_Cancer/clinical_data/GSE49278.csv

@@ -1,4 +0,0 @@
-GSM1196511,GSM1196512,GSM1196513,GSM1196514,GSM1196515,GSM1196516,GSM1196517,GSM1196518,GSM1196519,GSM1196520,GSM1196521,GSM1196522,GSM1196523,GSM1196524,GSM1196525,GSM1196526,GSM1196527,GSM1196528,GSM1196529,GSM1196530,GSM1196531,GSM1196532,GSM1196533,GSM1196534,GSM1196535,GSM1196536,GSM1196537,GSM1196538,GSM1196539,GSM1196540,GSM1196541,GSM1196542,GSM1196543,GSM1196544,GSM1196545,GSM1196546,GSM1196547,GSM1196548,GSM1196549,GSM1196550,GSM1196551,GSM1196552,GSM1196553,GSM1196554
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output/preprocess/Adrenocortical_Cancer/clinical_data/GSE68606.csv

@@ -1,4 +0,0 @@
-,GSM1676864,GSM1676865,GSM1676866,GSM1676867,GSM1676868,GSM1676869,GSM1676870,GSM1676871,GSM1676872,GSM1676873,GSM1676874,GSM1676875,GSM1676876,GSM1676877,GSM1676878,GSM1676879,GSM1676880,GSM1676881,GSM1676882,GSM1676883,GSM1676884,GSM1676885,GSM1676886,GSM1676887,GSM1676888,GSM1676889,GSM1676890,GSM1676891,GSM1676892,GSM1676893,GSM1676894,GSM1676895,GSM1676896,GSM1676897,GSM1676898,GSM1676899,GSM1676900,GSM1676901,GSM1676902,GSM1676903,GSM1676904,GSM1676905,GSM1676906,GSM1676907,GSM1676908,GSM1676909,GSM1676910,GSM1676911,GSM1676912,GSM1676913,GSM1676914,GSM1676915,GSM1676916,GSM1676917,GSM1676918,GSM1676919,GSM1676920,GSM1676921,GSM1676922,GSM1676923,GSM1676924,GSM1676925,GSM1676926,GSM1676927,GSM1676928,GSM1676929,GSM1676930,GSM1676931,GSM1676932,GSM1676933,GSM1676934,GSM1676935,GSM1676936,GSM1676937,GSM1676938,GSM1676939,GSM1676940,GSM1676941,GSM1676942,GSM1676943,GSM1676944,GSM1676945,GSM1676946,GSM1676947,GSM1676948,GSM1676949,GSM1676950,GSM1676951,GSM1676952,GSM1676953,GSM1676954,GSM1676955,GSM1676956,GSM1676957,GSM1676958,GSM1676959,GSM1676960,GSM1676961,GSM1676962,GSM1676963,GSM1676964,GSM1676965,GSM1676966,GSM1676967,GSM1676968,GSM1676969,GSM1676970,GSM1676971,GSM1676972,GSM1676973,GSM1676974,GSM1676975,GSM1676976,GSM1676977,GSM1676978,GSM1676979,GSM1676980,GSM1676981,GSM1676982,GSM1676983,GSM1676984,GSM1676985,GSM1676986,GSM1676987,GSM1676988,GSM1676989,GSM1676990,GSM1676991,GSM1676992,GSM1676993,GSM1676994,GSM1676995,GSM1676996,GSM1676997,GSM1676998,GSM1676999,GSM1677000
-Adrenocortical_Cancer,,,0.0,,,,,,,,0.0,0.0,0.0,0.0,0.0,,,0.0,0.0,0.0,0.0,0.0,0.0,0.0,,1.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,,0.0,,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,1.0,,0.0,0.0,,1.0,0.0,0.0,0.0,0.0,0.0,,,,,,,,,,,,,,,,,,1.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,,,,1.0,0.0,0.0,,0.0,0.0,0.0,0.0,0.0,,,0.0,,0.0,0.0,1.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,,,,,,,,,
-Age,,,,,,,,,,,67.0,66.0,72.0,56.0,48.0,,,,,,,,,,,,,,,,,,,,,,,,48.0,,,66.0,56.0,72.0,,67.0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,67.0,56.0,48.0,,,,,,,,,66.0,72.0,,,,,,,,,,67.0,56.0,,66.0,,,48.0,,72.0,,,,,,,,,,,,,,,,,,,,,
-Gender,,,0.0,,,,,,,,1.0,1.0,1.0,0.0,0.0,,,,,,,,,,,,,,,,,,,,,,,,0.0,,,1.0,0.0,1.0,,1.0,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,1.0,0.0,0.0,,,,,,,,,1.0,1.0,,,,,,,,,,1.0,0.0,,1.0,,,0.0,,1.0,,,,,,,,,,,,,,,,,,,,,

output/preprocess/Adrenocortical_Cancer/clinical_data/GSE76019.csv

@@ -1,5 +0,0 @@
-,Adrenocortical_Cancer
-0,
-1,2.0
-2,
-3,

output/preprocess/Adrenocortical_Cancer/clinical_data/TCGA.csv

@@ -1,93 +0,0 @@
-sampleID,Adrenocortical_Cancer,Age,Gender
-TCGA-OR-A5J1-01,1,58,1
-TCGA-OR-A5J2-01,1,44,0
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-TCGA-PK-A5HC-01,1,44,0

output/preprocess/Adrenocortical_Cancer/gene_data/GSE108088.csv

@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
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-size 11463867

output/preprocess/Adrenocortical_Cancer/gene_data/GSE143383.csv

@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
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-size 12280887

output/preprocess/Adrenocortical_Cancer/gene_data/GSE49278.csv

@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
-oid sha256:50244d89a614a75c24cc1d96f2821219bb80b39c6c002628b7e54cfc9deb1bdb
-size 28531615

output/preprocess/Adrenocortical_Cancer/gene_data/GSE68606.csv

@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
-oid sha256:80af5c124e061b70ddeb4b6ac99da9ede8c57b0dc32e47190d69874a7888006d
-size 17468907

output/preprocess/Age-Related_Macular_Degeneration/clinical_data/GSE67899.csv

@@ -1,2 +0,0 @@
-Sample_1,Sample_2,Sample_3,Sample_4,Sample_5,Sample_6,Sample_7,Sample_8,Sample_9,Sample_10,Sample_11
-0.0,0.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0

output/preprocess/Allergies/clinical_data/GSE169149.csv

@@ -1,2 +0,0 @@
-,GSM5176932,GSM5176933,GSM5176934,GSM5176935,GSM5176936,GSM5176937,GSM5176938,GSM5176939,GSM5176940,GSM5176941,GSM5176942,GSM5176943,GSM5176944,GSM5176945,GSM5176946,GSM5176947,GSM5176948,GSM5176949,GSM5176950,GSM5176951,GSM5176952,GSM5176953,GSM5176954,GSM5176955,GSM5176956,GSM5176957,GSM5176958,GSM5176959,GSM5176960,GSM5176961,GSM5176962
-Allergies,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,1.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0,0.0

output/preprocess/Allergies/clinical_data/GSE192454.csv

@@ -1,2 +0,0 @@
-,GSM5747314,GSM5747315,GSM5747316,GSM5747317,GSM5747318,GSM5747319,GSM5747320,GSM5747321,GSM5747322,GSM5747323,GSM5747324,GSM5747325,GSM5747326,GSM5747327,GSM5747328,GSM5747329,GSM5747330,GSM5747331,GSM5747332,GSM5747333,GSM5747334,GSM5747335,GSM5747336,GSM5747337,GSM5747338,GSM5747339,GSM5747340,GSM5747341,GSM5747342,GSM5747343,GSM5747344,GSM5747345
-Allergies,0.0,1.0,1.0,1.0,0.0,1.0,0.0,1.0,1.0,1.0,1.0,1.0,0.0,1.0,1.0,1.0,1.0,1.0,0.0,1.0,0.0,1.0,1.0,1.0,1.0,0.0,1.0,1.0,1.0,1.0,0.0,1.0

output/preprocess/Allergies/clinical_data/GSE203409.csv

@@ -1,2 +0,0 @@
-,GSM6171512,GSM6171513,GSM6171514,GSM6171515,GSM6171516,GSM6171517,GSM6171518,GSM6171519,GSM6171520,GSM6171521,GSM6171522,GSM6171523,GSM6171524,GSM6171525,GSM6171526,GSM6171527,GSM6171528,GSM6171529,GSM6171530,GSM6171531,GSM6171532,GSM6171533,GSM6171534,GSM6171535,GSM6171536,GSM6171537,GSM6171538,GSM6171539,GSM6171540,GSM6171541,GSM6171542,GSM6171543,GSM6171544,GSM6171545,GSM6171546,GSM6171547,GSM6171548,GSM6171549,GSM6171550,GSM6171551,GSM6171552,GSM6171553,GSM6171554,GSM6171555,GSM6171556,GSM6171557,GSM6171558,GSM6171559
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output/preprocess/Allergies/clinical_data/GSE205151.csv

@@ -1,2 +0,0 @@
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